Stem-loop sequence rno-mir-3557

Accession

MI0015415 (change log)

Description

Rattus norvegicus miR-3557 stem-loop

Gene family

MIPF0000168; mir-378

Literature search

1 open access papers mention rno-mir-3557
(1 sentences)

Stem-loop

   -   g   aa      ---u         c            a    --a   c    u 
5'  agc ggg  ggugac    ccacucagg cuucugacucca gucc   gug uauu c
    ||| |||  ||||||    ||||||||| |||||||||||| ||||   ||| ||||  
3'  ucg ucc  ccacug    ggugggucc gaggacugaggu cagg   cac augg g
   g   g   -c      ucuc         c            c    aca   a    a 

Deep sequencing

672 reads, 0 reads per million, 61 experiments

Confidence

Annotation confidence: not enough data

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr18: 56726128-56726240 [+]
• Overlapping transcripts:

  antisense

  ENSRNOT00000023661 ; Ppargc1b-202; intron 1

Clustered miRNAs

< 10kb from rno-mir-3557

• rno-mir-3557: chr18: 56726128-56726240 [+]
• rno-mir-378a: chr18: 56726150-56726214 [-]

Database links

• EntrezGene:Mir3557
• miRBase Tracker:MI0015415

Mature sequence rno-miR-3557-5p

• Accession: MIMAT0017819
• Sequence: 25 - gccuucugacuccaaguccagu - 46
• Deep sequencing: 27 reads, 22 experiments
• Evidence: experimental; SOLiD [1]
• Predicted targets:
  • TargetScanVert:rno-miR-3557-5p
  • miRDB:rno-miR-3557-5p

Mature sequence rno-miR-3557-3p

• Accession: MIMAT0017820
• Sequence: 63 - acacaggaccuggagucaggag - 84
• Deep sequencing: 622 reads, 152 experiments
• Evidence: experimental; SOLiD [1]
• Predicted targets:
  • TargetScanVert:rno-miR-3557-3p
  • miRDB:rno-miR-3557-3p

References

1. PMID:20403161 "Small RNA expression and strain specificity in the rat" Linsen SE, de Wit E, de Bruijn E, Cuppen E BMC Genomics. 11:249(2010).